From 0212e0cb8f8d0be0e927dfb95ffc68d251b42fb9 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Fri, 1 Oct 2021 17:15:38 +0200
Subject: [PATCH] emase-zero: redirect all output to report file
---
src/nf_modules/emase-zero/main.nf | 3 ++-
1 file changed, 2 insertions(+), 1 deletion(-)
diff --git a/src/nf_modules/emase-zero/main.nf b/src/nf_modules/emase-zero/main.nf
index 179078b1..02b64fe4 100644
--- a/src/nf_modules/emase-zero/main.nf
+++ b/src/nf_modules/emase-zero/main.nf
@@ -48,10 +48,11 @@ grep ">" ${fasta} | sed 's/>//' > tr_list.txt
grep -Fw -f tr_list.txt ${gene_to_transcript} | \
sed -E 's/(.+gn[0-9]+)(.+)(_.+)/\\1\\3\\2\\3/g' > \
gene_to_transcript.txt
+
emase-zero ${params.count} \
-o ${bin.simpleName}.quantified \
-l ${transcript_length} \
-g gene_to_transcript.txt \
- ${bin} 2> ${file_id}_emase-zero_report.txt
+ ${bin} 2&1> ${file_id}_emase-zero_report.txt
"""
}
\ No newline at end of file
--
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